Locus 7376

Sequence ID X_DroMel_CAF1
Location 18,372,057 – 18,372,212
Length 155
Max. P 0.703054
window12089 window12090

overview

Window 9

Location 18,372,057 – 18,372,172
Length 115
Sequences 3
Columns 116
Reading direction forward
Mean pairwise identity 76.37
Mean single sequence MFE -20.81
Consensus MFE -15.47
Energy contribution -15.47
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -1.33
Structure conservation index 0.74
SVM decision value 0.36
SVM RNA-class probability 0.703054
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18372057 115 + 22224390
AAGGUAACAAAAAACAAAAGCUAAGCUAAAAAA-ACAACAACAAAACAGAGGGGCUGAGACGUAGGCCAGUCUGCAAUUGGUAGCAUGCGACGCUGGACUGUUGCAGCUAAAUUAA
..................((((..((((.....-.......(((..((((..((((........))))..))))...))).))))..((((((......))))))))))....... ( -24.92)
>DroSec_CAF1 16770 116 + 1
AAGGUAACAAAAAACAAAAGCUAAGCUAAAAAAAAAAAGAACUAAACUGAGGGGCUGAGACGUAGGCCAGUCUGCAAUUGGUAGCAUGCGACGCUGGACUGUUGCAGCUAAAUUAA
..................((((..((((..((.....((..((.......))..)).....(((((....)))))..))..))))..((((((......))))))))))....... ( -21.50)
>DroEre_CAF1 15961 88 + 1
AAGGUAACAAAAAGCAAAAACGGAUGAAAAAA-----------------AA-----------CAAGCCAGUCUGCAAUUGGUAGCAUGCGACUCUGGACUGUUGCAGCUAAAUUAA
................................-----------------..-----------...((((((.....))))))(((.((((((........)))))))))....... ( -16.00)
>consensus
AAGGUAACAAAAAACAAAAGCUAAGCUAAAAAA_A_AA_AAC_AAAC_GAGGGGCUGAGACGUAGGCCAGUCUGCAAUUGGUAGCAUGCGACGCUGGACUGUUGCAGCUAAAUUAA
.................................................................((((((.....))))))(((.((((((........)))))))))....... (-15.47 = -15.47 +   0.00)

alignment

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secondary structure

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dotplot

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Window 0

Location 18,372,092 – 18,372,212
Length 120
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 83.06
Mean single sequence MFE -31.30
Consensus MFE -25.32
Energy contribution -27.43
Covariance contribution 2.11
Combinations/Pair 1.03
Mean z-score -1.51
Structure conservation index 0.81
SVM decision value 0.08
SVM RNA-class probability 0.575350
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18372092 120 + 22224390
AACAACAAAACAGAGGGGCUGAGACGUAGGCCAGUCUGCAAUUGGUAGCAUGCGACGCUGGACUGUUGCAGCUAAAUUAAAUUAAAAUAAAAGUGCGCUAAGGUUGCGCCCAAUCCAGCC
................(((((.((.(((((....)))))..((((((((.(((((((......)))))))))))....................((((.......))))))))))))))) ( -34.80)
>DroSec_CAF1 16806 120 + 1
AAGAACUAAACUGAGGGGCUGAGACGUAGGCCAGUCUGCAAUUGGUAGCAUGCGACGCUGGACUGUUGCAGCUAAAUUAAAUUAAAAUAAAAGUGCGCUAAGGUUGCGCCCAAUGCAGCC
................(((((....(((((....))))).(((((((((.(((((((......)))))))))))....................((((.......))))))))).))))) ( -35.10)
>DroEre_CAF1 15993 96 + 1
-------------AA-----------CAAGCCAGUCUGCAAUUGGUAGCAUGCGACUCUGGACUGUUGCAGCUAAAUUAAAUUAAAAUAAAAGUGCGCUAAGGUUGCGCCCAAUCCAGCC
-------------..-----------.......(.(((..(((((((((.((((((........))))))))))....................((((.......))))))))).)))). ( -24.00)
>consensus
AA_AAC_AAAC_GAGGGGCUGAGACGUAGGCCAGUCUGCAAUUGGUAGCAUGCGACGCUGGACUGUUGCAGCUAAAUUAAAUUAAAAUAAAAGUGCGCUAAGGUUGCGCCCAAUCCAGCC
................(((((....(((((....))))).(((((((((.((((((........))))))))))....................((((.......))))))))).))))) (-25.32 = -27.43 +   2.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:37:23 2006